Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A59 F1 I1 R1
|
21 |
55.8 |
3542164 |
96.7% |
3425272 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,886,192 |
A→C |
intergenic (‑22/+647) |
yobF ← / ← yebO |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,886,192 | 0 | A | C | 95.5%
| 284.9
/ ‑0.1
| 67 | intergenic (‑22/+647) | yobF/yebO | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (3/0); new base C (28/36); total (31/36) |
| Fisher's exact test for biased strand distribution p-value = 9.38e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
ATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCAC > REL606/1886119‑1886264
|
aTTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCAc < 2:871911/76‑1 (MQ=255)
ttCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCAcc > 2:1048711/1‑76 (MQ=255)
caacgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCg > 2:26590/1‑76 (MQ=255)
aacgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGa > 1:1416287/1‑76 (MQ=255)
cgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGaaa < 1:302584/76‑1 (MQ=255)
cgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGaaa < 2:260291/76‑1 (MQ=255)
gtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAAt < 1:800996/76‑1 (MQ=255)
tcaacgtGTTTACTCATGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATc < 1:1049764/76‑1 (MQ=255)
tcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATc > 2:1565689/1‑76 (MQ=255)
caacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCt < 1:1319307/76‑1 (MQ=255)
aacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTg > 2:856915/1‑76 (MQ=255)
cgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGtt < 1:1646304/76‑1 (MQ=255)
tgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTAt < 2:1063539/76‑1 (MQ=255)
gtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATc < 2:1009652/76‑1 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATca < 2:541708/76‑1 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATca > 2:721937/1‑76 (MQ=255)
ttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATcac > 2:1459896/1‑76 (MQ=255)
tACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATcaca > 1:1078042/1‑76 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATa > 1:62971/1‑76 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATa < 1:1282272/76‑1 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACa < 2:429015/76‑1 (MQ=255)
cAGGACTTCTTTACTGAAAATGCAACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACa > 2:1690412/1‑76 (MQ=255)
aGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACaa < 1:1455274/76‑1 (MQ=255)
aGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACaa < 2:463623/76‑1 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAAc < 2:69815/76‑1 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAAc > 2:426387/1‑76 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAAc < 1:827291/76‑1 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAAc < 1:933669/76‑1 (MQ=255)
gACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACg > 1:1502890/1‑76 (MQ=255)
ttcttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTa < 2:1196818/76‑1 (MQ=255)
cttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAAt > 1:1010220/1‑76 (MQ=255)
tttACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAAtt > 1:760948/1‑76 (MQ=255)
ttACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTa > 2:854030/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTAt < 2:671649/76‑1 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATg > 1:1118923/1‑76 (MQ=255)
tGAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGc > 1:877703/1‑76 (MQ=255)
gAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCa < 2:1705716/76‑1 (MQ=255)
gAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCa < 2:1083074/76‑1 (MQ=255)
gAAAATGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCa < 1:1442074/76‑1 (MQ=255)
aaaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCaa > 1:1533315/1‑76 (MQ=255)
aaaTGCCACACATAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAg > 2:1001289/1‑76 (MQ=255)
cacacaTAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAttt > 2:526/1‑76 (MQ=255)
cacacaTAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAttt < 2:1668366/76‑1 (MQ=255)
cacaTAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAttttt > 2:781775/1‑76 (MQ=255)
caTAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTaa < 2:137294/76‑1 (MQ=255)
caTAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTaa < 2:181314/76‑1 (MQ=255)
tAAACAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAAc < 1:1243294/76‑1 (MQ=255)
aaaCAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACa > 2:935103/1‑76 (MQ=255)
aaaCAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACa > 1:1645097/1‑76 (MQ=255)
aCAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATg < 1:119321/76‑1 (MQ=255)
cAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGt < 2:229135/76‑1 (MQ=255)
cAGAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGt > 1:250948/1‑76 (MQ=255)
gAACTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct > 1:95780/1‑76 (MQ=255)
aaCTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtctc < 1:818418/76‑1 (MQ=255)
aCTGTACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCg < 1:843474/76‑1 (MQ=255)
tACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGTCATTTTTAAACATGTCTCGATCa > 2:1402611/1‑76 (MQ=255)
tACCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCa > 2:1014938/1‑76 (MQ=255)
aCCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAg < 1:370429/76‑1 (MQ=255)
aCCTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAg < 1:1114744/76‑1 (MQ=255)
ccTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGa < 1:605972/76‑1 (MQ=255)
ccTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGa < 2:1068184/76‑1 (MQ=255)
cTCGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGAc > 1:1511796/1‑76 (MQ=255)
cGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGc > 1:1112264/1‑76 (MQ=255)
cGTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGc > 1:1040118/1‑76 (MQ=255)
gTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGca < 1:325408/76‑1 (MQ=255)
gTTTCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGca > 2:88261/1‑76 (MQ=255)
tttCACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGcac < 2:1722678/76‑1 (MQ=255)
|
ATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCAC > REL606/1886119‑1886264
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
